v1.5.0

R package cellxgene.census V1 is out

The Census team is pleased to announce the release of the R package cellxgene.census.

This has been long coming since our Python release back in May. Now, from R, computational biologists can access the Census data which is the largest standardized aggregation of single-cell data, composed of >30M cells and >60K genes.

With cellxgene.census in a few seconds users can access any slice of Census data using cell or gene filters across hundreds of datasets. The data can be fetched in an iterative fashion for bigger-than-memory slices of data, or quickly exported to basic R structures, and Seurat or SingleCellExperiment for downstream analysis.

Make sure to checkout the R docs from our doc-site, links can be found in the github repo chanzuckerberg/cellxgene-census.

Additions

• [builder] add normalization layer and computed axes statistics by @bkmartinjr in #612
• [builder] add dataset_version_id by @bkmartinjr in #618
• [builder] implement worker count limit by @bkmartinjr in #673
• [python] PCA demo notebook by @bkmartinjr in #580
• [r] Add get_single_cell_experiment by @pablo-gar in #640

Fixes

• [docs] cell guide button beta tag alignment by @ebezzi in #657
• [builder] fix merge error in schema doc by @bkmartinjr in #662
• [docs] Add mean_variance notebook symlink by @ebezzi in #677
• [docs] Fix number of unique cells for human in doc site by @pablo-gar in #678
• [r] restore vignettes to docsite (in static HTML form) by @mlin in #583
• [r] Fix copying R docs, doc-site CI by @pablo-gar in #681

What's Changed

• [builder] bump Census build minimum disk space requirement to 1.8TiB by @bkmartinjr in #661
• [python] bound pytorch memory usage by @atolopko-czi in #654
• [docs] Fetch docsite version number from git tags by @ebezzi in #675
• [docs] fetch-depth: 0 for docsite build by @ebezzi in #679
• [r] Audit r vignettes by @pablo-gar in #686
• [r] Update R docs and doc-site by @pablo-gar in #684
• [r] run R tests with both release and latest versions of tiledbsoma by @mlin in #691
• [r] Change R Dependencies by @pablo-gar in #693
• [r] Update DESCRIPTION to remove windows support from R by @pablo-gar in #692
• Suggesting very minor edits to comp_bio_data_integration.Rmd by @eddelbuettel in #694
• [r] Update to version 1.5.0 and rebuild doc-site by @pablo-gar in #695

New Contributors

• @eddelbuettel made their first contribution in #694

Full Changelog: v1.4.0...v1.5.0